Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

73

Sequences:

409

Seq/Len:

5.6

HH_delta:

0.835 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

22_D

25_Q

0.35519

2.634

48_C

51_C

0.27364

2.030

1_C

4_C

0.22806

1.691

61_C

66_C

0.22498

1.669

63_S

67_P

0.2181

1.618

39_R

43_E

0.21261

1.577

25_Q

29_N

0.20921

1.552

15_L

47_I

0.20896

1.550

45_W

49_Q

0.20292

1.505

48_C

66_C

0.20003

1.484

20_R

23_P

0.19682

1.460

63_S

66_C

0.19234

1.427

40_R

71_E

0.18972

1.407

41_F

49_Q

0.18723

1.389

10_E

33_R

0.18263

1.355

51_C

66_C

0.18045

1.338

15_L

35_R

0.17522

1.300

33_R

36_E

0.17401

1.291

69_F

72_R

0.17289

1.282

26_T

35_R

0.17093

1.268

22_D

34_L

0.16814

1.247

6_A

18_N

0.16376

1.215

8_T

15_L

0.15259

1.132

62_D

73_V

0.14506

1.076

51_C

61_C

0.1434

1.064

66_C

70_Y

0.14001

1.038

9_Q

17_S

0.13981

1.037

58_E

71_E

0.13906

1.031

23_P

26_T

0.13822

1.025

24_Q

28_Y

0.13803

1.024

49_Q

70_Y

0.13775

1.022

2_L

21_S

0.13759

1.020

51_C

65_D

0.13652

1.013

47_I

63_S

0.13598

1.009

35_R

39_R

0.13512

1.002

6_A

73_V

0.13501

1.001

48_C

63_S

0.13122

0.973

64_L

69_F

0.13096

0.971

20_R

36_E

0.13072

0.970

36_E

42_N

0.13037

0.967

28_Y

32_S

0.12904

0.957

64_L

71_E

0.12897

0.957

22_D

27_I

0.12851

0.953

21_S

25_Q

0.12849

0.953

20_R

40_R

0.12791

0.949

43_E

71_E

0.12743

0.945

51_C

63_S

0.12588

0.934

5_G

8_T

0.12437

0.922

37_L

40_R

0.12198

0.905

48_C

65_D

0.12142

0.901

59_I

70_Y

0.1206

0.894

3_V

31_L

0.12045

0.893

54_S

57_E

0.12029

0.892

21_S

27_I

0.11936

0.885

29_N

47_I

0.119

0.883

17_S

20_R

0.11721

0.869

61_C

65_D

0.11631

0.863

50_S

65_D

0.11621

0.862

7_K

30_L

0.11609

0.861

36_E

39_R

0.116

0.860

31_L

46_T

0.11458

0.850

53_G

59_I

0.1143

0.848

24_Q

34_L

0.11363

0.843

21_S

24_Q

0.11259

0.835

14_P

67_P

0.11216

0.832

24_Q

27_I

0.1117

0.828

35_R

53_G

0.11137

0.826

60_E

73_V

0.11113

0.824

8_T

69_F

0.11031

0.818

21_S

32_S

0.11025

0.818

29_N

36_E

0.10954

0.812

35_R

38_E

0.10927

0.810

2_L

30_L

0.10916

0.810

24_Q

33_R

0.1087

0.806

17_S

32_S

0.10859

0.805

66_C

72_R

0.1079

0.800

23_P

64_L

0.10789

0.800

2_L

10_E

0.10758

0.798

30_L

57_E

0.1074

0.797

37_L

43_E

0.10716

0.795

37_L

41_F

0.10653

0.790

6_A

39_R

0.10567

0.784

15_L

32_S

0.10405

0.772

48_C

67_P

0.10388

0.770

17_S

35_R

0.10321

0.765

45_W

59_I

0.10302

0.764

3_V

64_L

0.10265

0.761

5_G

43_E

0.10254

0.761

10_E

28_Y

0.10215

0.758

2_L

65_D

0.1021

0.757

44_L

63_S

0.10208

0.757

45_W

53_G

0.10205

0.757

30_L

40_R

0.10193

0.756

48_C

61_C

0.10171

0.754

7_K

33_R

0.10148

0.753

41_F

45_W

0.1009

0.748

17_S

38_E

0.10035

0.744

30_L

37_L

0.10029

0.744

29_N

34_L

0.09977

0.740

17_S

29_N

0.0993

0.736

18_N

31_L

0.0993

0.736

33_R

63_S

0.0992

0.736

52_S

59_I

0.09912

0.735

19_C

72_R

0.09903

0.734

10_E

21_S

0.09888

0.733

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)